×

nf-core/sageproteomics/sage @ 0.0.0-6c4ed3a

sage is a search software for proteomics data

proteomics sage mass spectrometry
Latest version: 0.0.0-6c4ed3a
Total downloads: 9
Source: nf-core/modules
Authors: @dgemperline-lilly
Maintainers: @dgemperline-lilly

Summary

sage is a search software for proteomics data

Get started

Add the following snippet to your workflow script to include this module.

include { SAGEPROTEOMICS_SAGE } from 'nf-core/sageproteomics/sage'

License

MIT License

Process
Name SAGEPROTEOMICS_SAGE
Input 3 channels
#1 tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1']
*.mzML file

mzML files for proteomics search

 *.mzML
#2 tuple
meta2 map

Groovy Map containing information about fasta_proteome e.g. [ id:'sample1']
fasta_proteome file

proteome database in fasta format

 *.{fasta,fasta.gz}
#3 tuple
meta3 map

Groovy Map containing information about base_config e.g. [ id:'sample1']
base_config file

sage configuration json

 *.json
Output 6 channels
#1 lfq_tsv tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1']
lfq.tsv file

label free quantification

 lfq.tsv
#2 tmt_tsv tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1']
tmt.tsv file

tandem mass tag quantification

 tmt.tsv
#3 versions
versions.yml file

File containing software versions

 versions.yml
#4 results_pin tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1']
results.sage.pin file

pin format output results

 results.sage.pin
#5 results_tsv tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1']
results.sage.tsv file

tsv output results

 results.sage.tsv
#6 results_json tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1']
results.json file

json output results

 results.json
Tool Description Homepage
sageproteomics Proteomics searching so fast it feels like magic. https://lazear.github.io/sage/
Version 0.0.0-6c4ed3a
Commit ID 6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date 23 Apr 2026 15:41:43 (UTC)
Download URL https://registry.nextflow.io/api/v1/modules/nf-core%2Fsageproteomics%2Fsage/0.0.0-6c4ed3a/download
OCI Store URL https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/sageproteomics/sage/blobs/sha256:7c74da91f45308a83e830d4bdd7b86c2dfb9f2f24a860499fa4ade303cba1f7a
Size 2.7 KB
Checksum sha256:7c74da91f45308a83e830d4bdd7b86c2dfb9f2f24a860499fa4ade303cba1f7a
Downloads 3
Version Date Status Downloads Size
0.0.0-6c4ed3a